Variant report

Variant	rs9496352
Chromosome Location	chr6:142683129-142683130
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:142621912..142626098-chr6:142682605..142686113,5	MCF-7	breast:
2	chr6:142659623..142661197-chr6:142681381..142684257,2	MCF-7	breast:
3	chr6:142681414..142683380-chr6:142691600..142694541,2	MCF-7	breast:
4	chr6:142675895..142678114-chr6:142681303..142684417,3	MCF-7	breast:
5	chr6:142622374..142624698-chr6:142682481..142685205,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000112414	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10223419	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs13437159	0.90[AFR][1000 genomes]
rs28489749	1.00[AFR][1000 genomes]
rs9321864	1.00[AFR][1000 genomes]
rs9321868	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9484622	1.00[AFR][1000 genomes]
rs9484623	1.00[AFR][1000 genomes]
rs9484624	1.00[AFR][1000 genomes]
rs9484625	1.00[AFR][1000 genomes]
rs9484626	1.00[AFR][1000 genomes]
rs9484637	0.90[AFR][1000 genomes]
rs9484642	0.90[AFR][1000 genomes]
rs9484643	1.00[AFR][1000 genomes]
rs9496335	1.00[AFR][1000 genomes]
rs9496337	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9496339	1.00[AFR][1000 genomes]
rs9496340	1.00[AFR][1000 genomes]
rs9496342	1.00[AFR][1000 genomes]
rs9496343	1.00[YRI][hapmap]
rs9496344	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9496345	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9496347	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs9496348	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9496353	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9496366	1.00[AFR][1000 genomes]
rs9496370	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9496377	0.90[AFR][1000 genomes]
rs9496380	1.00[YRI][hapmap];0.90[AFR][1000 genomes]
rs9496382	1.00[YRI][hapmap];0.90[AFR][1000 genomes]
rs9496389	1.00[AFR][1000 genomes]
rs9496390	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949088	chr6:142561402-143128849	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv830825	chr6:142585242-142752575	Enhancers Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:142676800-142688600	Weak transcription	Fetal Heart	heart
2	chr6:142679400-142684800	Weak transcription	Fetal Brain Female	brain
3	chr6:142679400-142688200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr6:142679400-142693200	Weak transcription	Hela-S3	cervix
5	chr6:142680800-142683800	Enhancers	Fetal Lung	lung
6	chr6:142681000-142695200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr6:142681200-142684000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr6:142681400-142684000	Enhancers	Placenta Amnion	Placenta Amnion
9	chr6:142682000-142683800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr6:142682000-142683800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr6:142682000-142683800	Enhancers	Placenta	Placenta
12	chr6:142682000-142683800	Enhancers	NHLF	lung
13	chr6:142682000-142684000	Enhancers	Liver	Liver
14	chr6:142682000-142684000	Enhancers	HUVEC	blood vessel
15	chr6:142682200-142683200	Enhancers	HSMM	muscle
16	chr6:142682200-142683600	Enhancers	Osteobl	bone
17	chr6:142682200-142683800	Enhancers	Muscle Satellite Cultured Cells	--
18	chr6:142682200-142683800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr6:142682200-142683800	Enhancers	Fetal Intestine Large	intestine
20	chr6:142682200-142683800	Flanking Active TSS	A549	lung
21	chr6:142682400-142683600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr6:142682400-142683600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr6:142682400-142683800	Enhancers	Fetal Intestine Small	intestine
24	chr6:142682400-142683800	Enhancers	HMEC	breast
25	chr6:142682600-142694600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr6:142682800-142683200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr6:142682800-142693600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr6:142682800-142694600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr6:142683000-142683200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr6:142683000-142683400	Weak transcription	Esophagus	oesophagus
31	chr6:142683000-142683600	Enhancers	Fetal Brain Male	brain
32	chr6:142683000-142683800	Enhancers	Fetal Kidney	kidney
33	chr6:142683000-142684000	Enhancers	HepG2	liver

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